R Markdown Learning

所有文字和代码来源于rstudio官网rmarkdown文档。

Installation

install.packages("rmarkdown")

Viridis colors

install.packages("viridis")

require(viridis)
image(volcano, col=viridis(200))

Rendering output

library(rmarkdown)
render("1-example.Rmd")

Code Chunks

You can quickly insert chunks like these into your file with

• the keyboard shortcut Ctrl + Alt + I (OS X: Cmd + Option + I)
• the Add Chunk command in the editor toolbar

or by typing the chunk delimiters ```{r} and ```.

Chunk Options

• include = FALSE prevents code and results from appearing in the finished file. R Markdown still runs the code in the chunk, and the results can be used by other chunks.
• echo = FALSE prevents code, but not the results from appearing in the finished file. This is a useful way to embed figures.
• message = FALSE prevents messages that are generated by code from appearing in the finished file.
• warning = FALSE prevents warnings that are generated by code from appearing in the finished.
• fig.cap = "..." adds a caption to graphical results.

See the R Markdown Reference Guide for a complete list of knitr chunk options.

Global Options

To set global options that apply to every chunk in your file, call knitr::opts_chunk$set in a code chunk. Knitr will treat each option that you pass to knitr::opts_chunk$set as a global default that can be overwritten in individual chunk headers.

Inline Code

colorFunc <- "heat.colors"

然后可以在行内代码中使用它，比如运行“r colorFunc”会显示heat.colors。

Code Languages

Rstudio现在支持的语言越来越多了，主要是Python和Shell。可以点击Rstudio上的Insert菜单项查看你的IDE可以支持插入哪些。

以下是我官方显示支持的：

• Python
• SQL
• Bash
• Rcpp
• Stan
• JavaScript
• CSS

Parameters

R markdown头部可以添加一些YAML参数，比如使用data参数方便以后直接调用一些数据。

Tables

表格使用knitr::kable函数

Markdown Basics

Output Formats

Dashboards

• Each Level 1 Header (#) begins a new page in the dashboard.
• Each Level 2 Header (##) begins a new column.
• Each Level 3 Header (###) begins a new box.

Websites

交互式文档

htmlwidgets

Shiny